Anne V BrownBayer CropScience
Anne V Brown
Doctor of Philosophy
About
14
Publications
3,312
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305
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Citations since 2017
Introduction
Anne V Brown currently works at the Agricultural Research Service (ARS), United States Department of Agriculture. Anne does research in Molecular Biology, Genetics and Bioinformatics. Their current project is 'Characterizing and comparing international germplasm collections.' She is also currently working on building a Variant database for soybean.
Additional affiliations
September 2016 - present
August 2011 - August 2016
Publications
Publications (14)
In this chapter, we introduce the main components of the Legume Information System (https://legumeinfo.org) and several associated resources. Additionally, we provide an example of their use by exploring a biological question: is there a common molecular basis, across legume species, that underlies the photoperiod-mediated transition from vegetativ...
Seeds, especially those of certain grasses and legumes, provide the majority of the protein and carbohydrates for much of the world’s population. Therefore, improvements in seed quality and yield are important drivers for the development of new crop varieties to feed a growing population. Quantitative Trait Loci (QTL) have been identified for many...
We report characteristics of soybean genetic diversity and structure from the resequencing of 481 diverse soybean accessions, comprising 52 wild ( Glycine soja ) selections and 429 cultivated ( Glycine max ) varieties (landraces and elites). This data was used to identify 7.8 million SNPs, to predict SNP effects relative to genic regions, and to id...
SoyBase, a USDA genetic and genomics database, holds professionally curated soybean genetic and genomic data, which is integrated and made accessible to researchers and breeders. The site holds several reference genome assemblies, as well as genetic maps, thousands of mapped traits, expression and epigenetic data, pedigree information, and extensiv...
Background
Large genotyping datasets have become commonplace due to efficient, cheap methods for SNP identification. Typical genotyping datasets may have thousands to millions of data points per accession, across tens to thousands of accessions. There is a need for tools to help rapidly explore such datasets, to assess characteristics such as overa...
GCViT is a tool to visually compare differences between two or more accessions in a dataset based on SNP data.
Here is the GCViT front page found at soybase.org/gcvit
This picture shows the comparison of 15 soybeans lines, using the histogram and heatmap displays, to a wild G.soja soybean accession.
We report reference-quality genome assemblies and annotations for two accessions of soybean (Glycine max) and one of Glycine soja, the closest wild relative of G. max. The G. max assemblies are for widely used U.S. cultivars: the northern line 'Williams 82' (Wm82); and the southern line 'Lee'. The Wm82 assembly improves the prior published assembly...
Background:
Breeding programs benefit from information about marker-trait associations for many traits, whether the goal is to place those traits under active selection or to maintain them through background selection. Association studies are also important for identifying accessions bearing potentially useful alleles by characterizing marker-trai...
Common bean (Phaseolus vulgaris L.), one of the most important grain legume crops for direct human consumption, faces many challenges as a crop. Domesticated from wild relatives that inhabit a relatively narrow ecological niche, common bean faces a wide range of biotic and abiotic constraints within its diverse agroecological settings. Biotic stres...
As sequencing prices drop, genomic data accumulates-seemingly at a steadily increasing pace. Most genomic data potentially have value beyond the initial purpose-but only if shared with the scientific community. This, of course, is often easier said than done. Some of the challenges in sharing genomic data include data volume (raw file sizes and num...
Immediately following germination, the developing soybean seedling relies on the nutrient reserves stored in the cotyledons to sustain heterotrophic growth. During the seed filling period, developing seeds rely on the transport of nutrients from the trifoliate leaves. In soybean, both cotyledons and leaves develop the capacity for photosynthesis, a...
Immediately following germination, the developing soybean plant relies on the nutrient reserves stored in the cotyledons to sustain heterotrophic growth. Likewise, a developing seed relies on the transport of nutrients from the trifoliate leaves. Before these tissues senesce, the nutrients must be mobilized and transported to other parts of the pla...
Projects
Projects (6)
To map patterns of genome-wide variation, population structure, and to facilitate identification of the genetic basis of agronomic traits in soybean. We resequenced 481 diverse soybean accessions, comprising 52 wild (Glycine soja) and 429 cultivated (Glycine max) varieties.
A whole genome visualization tool to display genomic features. GCViT can be used to compare sequence similarity between two or more genotyped accessions (either by re-sequencing or SNPchip). GCViT will plot differences and/or similarities between two or more accessions within a dataset using a VCF file. Similarity means that the same allele is present at the SNP position between the lines, difference indicates a different allele at the SNP position.
As dbSNP will not longer be available for non-human species, a new registry for soybean genotype data, as a partial replacement for this service at dbSNPa partial replacement is being created.
